Revise embeddings folder structure and explanation

README.md

@@ -69,10 +69,13 @@ dataset/
         ...
         image_set_63.tar.gz
 embeddings/
+    txt_emb_biocap.json
     txt_emb_biocap.npy
+    txt_emb_bioclip.json
     txt_emb_bioclip.npy
+    # generic 'species' emb files are duplicates of bioclip versions for pybioclip backward-compatibility
     txt_emb_species.json
-    txt_emb_species.npy    # duplicate of txt_emb_bioclip.npy to support backwards compatibility
+    txt_emb_species.npy
 metadata/
     catalog.csv
     species_level_taxonomy_chains.csv
@@ -90,7 +93,7 @@ visuals/
     phyla_ToL_tree.png
 ```
 
-[BioCLIP](https://huggingface.co/imageomics/bioclip) and [BioCAP](https://huggingface.co/imageomics/biocap) text embeddings for TreeOfLife-10M images are provided under `embeddings/txt_emb_<model-name>.npy`. The BioCLIP text embeddigns are duplicated as `txt_emb_species.npy` to maintain [`pybioclip`](http://github.com/Imageomics/pybioclip) functionality for versions 2.1.1 and earlier, which do not incorporate BioCAP as a "Tree of Life Model".
+[BioCLIP](https://huggingface.co/imageomics/bioclip) and [BioCAP](https://huggingface.co/imageomics/biocap) text embeddings for TreeOfLife-10M images are provided under `embeddings/txt_emb_<model-name>.npy` with associated labels `embeddings/txt_emb_<model-name>.json`. The BioCLIP text embeddings and labels are duplicated as `txt_emb_species.npy` and `txt_emb_species.json` to  maintain [`pybioclip`](http://github.com/Imageomics/pybioclip) functionality for versions 2.1.x and earlier, which do not incorporate BioCAP as a "Tree of Life Model". All three `embeddings/*.json` files are the same, since each model used the same label set; they are duplicated under the model-specific naming convention for [consistent by-model access by pybioclip](https://github.com/Imageomics/pybioclip/pull/171).
 
 Each `image_set` is approximately 30GB and contains 100 thousand images, each named `<treeoflife_id>.jpg`. 
 We cannot reproduce the `iNat21` data, but step-by-step [***reproduction instructions***](https://github.com/Imageomics/bioclip/blob/main/docs/imageomics/treeoflife10m.md#reproduce-treeoflife-10m) are provided on the BioCLIP GitHub repository to recreate the proper webdataset structure. This process will produce a collection of files named `shard-######.tar` in a `train`, `val`, and `train_small` folder with which to work.